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Branding in NBIA is accomplished by editing and or replacing the objects in the branding folders found in /software/common/resources/branding.  The nbia folder contained within is the default branding for NBIA.  The sub folder images contains the customizable images for the application, they include:

NameDimensions
FNLfCR-LOGO.

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png 200 x 39
footer_usagov.gif127 x 31
Logo-NCIA.jpg500 x  53
nci-header.png300 x 38
nci-link.png300 x 38
NCI-logo-white.png54 x 32
NCICBLOGO.gif126 x 43
white-ncilogo.gif263 x 39
white-nciurl.gif99 x 39
white-nihtext.gif208 x 39

To use your own images simply replace the image while keeping the same name as the original one in your new folder, and the build will update it accordingly.  At the base level of the folder are the XHTML/properties files that allow customization, the include:

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